Chenxu Yu

Continuous cropping obstacles, including soilborne plant pathogen accumulation and soil microbial community degradation, present a critical bottleneck limiting sustainable potato production worldwide. To tackle the prominent obstacles associated with potato continuous cropping, this study explored the potential of synthetic microbial communities (SynComs) in regulating soil microbial ecology and promoting potato growth. Three SynComs were constructed, including a single bacterial consortium (SB), a single fungal consortium (SF), and a bacteria-fungal mixed consortium (SBF), using four bacterial strains ( Bacillus licheniformis , Streptomyces sp., Pseudomonas lundensis , and Microbacterium sp.) and three fungal strains ( Penicillium sp., Aspergillus fumigatus , and Aspergillus terreus ). These SynComs were then evaluated for their effectiveness to overcome continuous cropping obstacles for potato in potted experiments, with non-inoculated group set as the blank control (CK). Our results demonstrated that the SBF consortium exhibited the most pronounced growth-promoting effect throughout the entire potato growth season. Specifically, SBF inoculation increased plant height, stem diameter, root length, and total biomass by 16.24%, 40.84%, 25.84%, and 13.86%, respectively, at the seedling stage; and 27.71%, 22.27%, 28.73%, and 39.31%, respectively, at the flowering stage. SynCom inoculation significantly altered both alpha and beta diversity of soil microbial communities and showed pronounced temporal dynamics. Mantel test analysis suggested that SynCom and pivotal bacterial taxa were the core driving factors for biomass accumulation in potato plants ( P < 0.05). Collectively, SynComs effectively increased the abundance of inoculate-related microbes and restructured rhizosphere microbiota to promote potato growth. This study provides a sustainable strategy for alleviating potato continuous cropping obstacles and improving potato productivity.

Chronic wasting disease (CWD) is a contagious neurodegenerative disease in cervids and its spread threatens the health of wild and farm-raised animals.

The invasive Silver Carp (Hypophthalmichthys molitrix) in North America represents a promising resource for surimi production; however, its gel formability deteriorates significantly during frozen storage. This study investigated the deterioration of gel properties in Silver Carp surimi over six months of frozen storage, and showed that short-term frozen storage (2 months) tended to have detrimental effects. The adverse effect of long-term frozen storage could be mitigated via using food additives (e.g., manufactured microfiber, transglutaminase, and chicken skin collagen), among which transglutaminase was the most effective. Transglutaminase at a relatively low level (0.1 wt%) could effectively negate frozen storage’s effects, and produced surimi gel with quality attributes (e.g., gel strength, hardness, and chewiness) at levels comparable to those from fresh fish samples. To assess the effects of the addition of various food additives for quality improvement, a synthetic data-driven machine learning (SDDML) approach was developed. After testing multiple algorithms, the random forest model was shown to yield synthetic data points that represented experimental data characteristics the best (R² values of 0.871–0.889). It also produced improved predictions for gel quality attributes from control variables (i.e., additive levels) compared to using experimental data alone, showing the potential to overcome data scarcity issues when only limited experimental data are available for ML models. A synthetic dataset of 240 data points was shown to supplement the experimental dataset (60 points) well for assessment of the Frozen Silver Carp (FSC) surimi gel quality attributes. The SDDML method could be used to find optimal recipes for generating additive profiles to counteract the adverse effects of frozen storage and to improve surimi gel quality to upgrade underutilized invasive species to value-added food products.

Synthetic microbial communities (SynComs) play significant roles in soil health and sustainable agriculture. In this study, bacterial SynComs (SCBs) and fungal SynComs (SCFs) were constructed by selecting microbial species that could degrade the potato root exudates associated with continuous cropping obstacles. SCBs, SCFs, and SCB + SCF combinations were then inoculated into organic fertilizers (OFs, made from sheep manure) to produce three bio-organic fertilizers (BOFs), denoted by SBFs (BOFs of inoculated SCBs), SFFs (BOFs of inoculated SCFs), and SBFFs (BOFs of inoculated SCB + SCF combinations), respectively. The OF and three BOFs, with a chemical fertilizer (CK) as the control, were then used in pot experiments involving potato growth with soil from a 4-year continuous cropping field. Microbial diversity sequencing was used to investigate the colonization of SCBs and SCFs into the rhizosphere soil and the bulk soil, and their effects on soil microbial diversity were evaluated. Source Tracker analysis showed that SCBs increased bacterial colonization from the SBFs into the rhizosphere soil, but at a relatively low level of 1% of the total soil bacteria, while SCFs increased fungi colonization from the SFF into the bulk soil at a much higher level of 5–18% of the total soil fungi. In combination, SCB + SCF significantly increased fungi colonization from the SBFF into both the bulk soil and the rhizosphere soil. Overall, the soil fungi were more susceptible to the influence of the BOFs than the bacteria. In general, the application of BOFs did not significantly change the soil microbial alpha diversity. Correlation network analysis showed that key species of bacteria were stable in the soils of the different groups, especially in the rhizosphere soil, while the key species of fungi significantly changed among the different groups. LEfSe analysis showed that the application of BOFs activated some rare species, which were correlated with improvements in the function categories of the tolerance of stress, nitrogen fixation, and saprotroph functions. Mantel test analysis showed that the BOFs significantly affected soil physicochemical properties, influencing bacterial key species, and core bacteria, promoting potato growth. It was also noted that the presence of SynCom-inoculated BOFs may lead to a slight increase in plant pathogens, which needs to be considered in the optimization of SynCom applications to overcome continuous cropping obstacles in potato production.

Silver Carp (SC) is an under-utilized, invasive species in North American river systems. In this study, the synergistic effects of manufactured Microfiber (MMF), Transglutaminase (TG), and chicken skin collagen (CLG)) to enhance surimi gel quality from frozen SC were studied. The gel strength, textural properties, rheological properties, water-holding capacity (WHC), water mobility, microstructure, and protein composition of the gel samples were determined to assess the impact of the additives individually and synergistically. The results suggested that TG had the most pronounced effect on the surimi gel properties by promoting protein cross-linking. Synergistic effects between TG, MMF, and CLG can bring effective gel property enhancement larger than the individual effect of each additive alone. With the established response-surface models, the combination of CLG and MMF can be optimized to produce surimi gels with less TG but comparable in properties to that of the optimal result with high TG usage. The findings of this study provided a technical foundation for making high-quality surimi gel products out of frozen-stored SC with synergistic utilization of additives, which could serve as guidelines for the industrial development of new surimi products.

For potato production, continuous cropping (CC) could lead to autotoxicity buildup and microflora imbalance in the field soil, which may result in failure of crops and reduction in yield. In this study, non-targeted metabolomics (via liquid chromatography with tandem mass spectrometry (LC–MS/MS)) combined with metagenomic profiling (via high-throughput amplicon sequencing) were used to evaluate correlations between metabolomics of potato root exudates and communities of bacteria and fungi around potato plants to illustrate the impacts of CC. Potato plants were grown in soil collected from fields with various CC years (0, 1, 4, and 7 years). Metabolomic analysis showed that the contents and types of potential autotoxins in potato root exudates increased significantly in CC4 and CC7 plants (i.e., grown in soils with 4 and 7 years of CC). The differentially expressed metabolites were mainly produced via alpha-linolenic acid metabolism in plant groups CC0 and CC1 (i.e., no CC or 1 year CC). The metabolomics of the groups CC4 and CC7 became dominated by styrene degradation, biosynthesis of siderophore group non-ribosomal peptides, phenylpropanoid biosynthesis, and biosynthesis of various plant secondary metabolites. Continuous cropping beyond 4 years significantly changed the bacterial and fungal communities in the soil around the potato crops, with significant reduction of beneficial bacteria and accumulation of harmful fungi. Correlations between DEMs and microflora biomarkers were established with strong significances. These results suggested that continuous cropping of potato crops changed their metabolism as reflected in the plant root exudates and drove rhizosphere microflora to directions less favorable to plant growth, and it needs to be well managed to assure potato yield.

Effective oral drugs and vaccines require high delivery efficiency across the gastrointestinal epithelia and protection of medically effective payloads (i.e., immunogens) against gastric damage. In this study, hollowed nanocarriers (NCs: silica nanospheres and gold nanocages) with poly-l-lysine (PLL) coating and mammalian orthoreovirus cell attachment protein σ1 functionalization (NC-PLL-σ1) were explored as functional oral drug delivery vehicles (ODDVs). The transport of these ODDVs to mucosal lymphoid tissues could be facilitated by microfold cells (M-cells) mediated transcytosis (via σ1-α2–3-linked sialic acids adherence) across gastrointestinal epithelia. PLL coating provided protection and slow-release of rhodamine 6 G (R6G), a model payload. The transport effectiveness of these ODDVs was tested on intestinal organoid monolayers in vitro. When compared with other experimental groups, the fully functionalized ODDV system (with PLL-σ1) demonstrated two significant advantages: a significantly higher transport efficiency (198% over blank control at 48 h); and protection of payloads which led to both better transport efficiency and extended-release of payloads (61% over uncoated carriers at 48 h). In addition, it was shown that the M cell presence in intestinal organoid monolayers (modulated by Rank L stimulation) was a determining factor on the transport efficiency of the ODDVs: more M-cells (induced by higher Rank L) in the organoid monolayers led to higher transport efficiency for ODDV-delivered model payload (R6G). The fully functionalized ODDVs showed great potential as effective oral delivery vehicles for drugs and vaccines.